Mercurial > repos > davidvanzessen > shm_csr

view change_o/makedb.sh @ 94:84e9e5c8c101 draft

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"planemo upload commit d4be85014b638f1d50b318d4b735be7f6e973140"
author rhpvorderman
date Fri, 24 Mar 2023 16:58:28 +0000
parents a103134ee6e0
children
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#!/bin/bash
dir="$(cd "$(dirname "$0")" && pwd)"

input=$1
noparse=$2
scores=$3
regions=$4
output=$5

if [ "true" == "$noparse" ] ; then
	noparse="--noparse"
else
	noparse=""
fi

if [ "true" == "$scores" ] ; then
	scores="--scores"
else
	scores=""
fi

if [ "true" == "$regions" ] ; then
	regions="--regions"
else
	regions=""
fi

mkdir $PWD/outdir

echo "makedb: $PWD/outdir"

MakeDb.py imgt -i $input --outdir $PWD/outdir --outname output $noparse $scores $regions

mv $PWD/outdir/output_db-pass.tab $output

rm -rf $PWD/outdir/